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(-) Description

Title :  STRUCTURAL STUDIES OF DESIGNED ALPHA-HELICAL HAIRPINS
 
Authors :  S. J. Lahr, D. E. Engel, S. E. Stayrook, O. Maglio, B. North, S. Geremia, A. Lombardi, W. F. Degrado
Date :  30 Nov 04  (Deposition) - 22 Mar 05  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (2x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  B  (2x)
Keywords :  Protein Design, Helical Hairpin, Turns, Diiron Proteins, De Novo Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. J. Lahr, D. E. Engel, S. E. Stayrook, O. Maglio, B. North, S. Geremia, A. Lombardi, W. F. Degrado
Analysis And Design Of Turns In Alpha-Helical Hairpins
J. Mol. Biol. V. 346 1441 2005
PubMed-ID: 15713492  |  Reference-DOI: 10.1016/J.JMB.2004.12.016

(-) Compounds

Molecule 1 - DUEFERRI (DF2)
    Chains: A, B
    Engineered: YES
    Other Details: DESIGNED PEPTIDE
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): A 
Biological Unit 2 (1x):  B
Biological Unit 3 (2x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric Unit (1, 3)
No.NameCountTypeFull Name
1CD3Ligand/IonCADMIUM ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1CD-1Ligand/IonCADMIUM ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1CD-1Ligand/IonCADMIUM ION
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1CD-1Ligand/IonCADMIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:10 , GLU A:36 , HIS A:39BINDING SITE FOR RESIDUE CD A 60
2AC2SOFTWAREGLU B:10 , GLU B:36 , HIS B:39BINDING SITE FOR RESIDUE CD B 61
3AC3SOFTWAREGLU B:19 , GLU B:44BINDING SITE FOR RESIDUE CD B 62

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1Y47)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1Y47)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1Y47)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1Y47)

(-) Exons   (0, 0)

(no "Exon" information available for 1Y47)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:46
                                                                             
               SCOP domains d1y47a1 A:1-46 Artificial diiron protein       SCOP domains
               CATH domains 1y47A00 A:1-46 Immunoglobulin FC, subunit C    CATH domains
               Pfam domains ---------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------- PROSITE
                 Transcript ---------------------------------------------- Transcript
                  1y47 A  1 DYLRELYKLEQQAMKLYREASERVGDPVLAKILEDEEKHIEWLETI 46
                                    10        20        30        40      


Chain B from PDB  Type:PROTEIN  Length:46
                                                                             
               SCOP domains d1y47b1 B:1-46 Artificial diiron protein       SCOP domains
               CATH domains 1y47B00 B:1-46 Immunoglobulin FC, subunit C    CATH domains
               Pfam domains ---------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------- PROSITE
                 Transcript ---------------------------------------------- Transcript
                  1y47 B  1 DYLRELYKLEQQAMKLYREASERVGDPVLAKILEDEEKHIEWLETI 46
                                    10        20        30        40
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 2)

Asymmetric Unit
(-)
Class: Designed proteins (167)

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1Y47)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 1Y47)

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  1y47
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 Related Entries

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